Stephensi Multiplexing Analysis

Author

P Leftwich

Homing Rates

Means and 95%CI for homing plots

Mean values

Transgenic wild-type cd225 cd384
cdg225 0.92
(0.63-0.99)
- 0.91
(0.58-0.99)
cdg338-384 1
(0.97-1)
- 0.96
(0.78-0.99)
cdg384_del 0.96
(0.87-0.99)
- -
cdg384 0.99
(0.98-1)
1
(0.98-1)
0.51
(0.14-0.87)

Summary model table

  Homing Rate
Predictors Odds Ratios 95% CI P-Value
(Intercept) 11.63 1.71 – 78.99 0.012
gRNA_typecdg338-384 18.95 1.22 – 293.69 0.035
gRNA type
[cdg384_del]
2.36 0.22 – 24.75 0.475
gRNA type
[cdg384]
15.02 1.71 – 132.34 0.015
pre cut
[cd225]
1.40 0.24 – 8.01 0.708
pre cut
[cd384]
0.82 0.05 – 12.49 0.886
gRNA_typecdg338-384:pre_cutcd384 0.14 0.00 – 6.38 0.309
gRNA type
[cdg384]
× pre cut
[cd384]
0.01 0.00 – 0.24 0.006
Random Effects
σ2 4.93
τ00 id:group_letter 1.64
τ00 group_letter 0.86
ICC 0.15
N id 328
N group_letter 13
Observations 328
Marginal R2 / Conditional R2 0.325 / 0.425

Contrasts

contrast odds.ratio SE df null z.ratio p.value
(cdg225 wild-type) / (cdg338-384 wild-type) 0.05 0.07 Inf 1 -2.1 0.04
(cdg225 wild-type) / (cdg384_del wild-type) 0.42 0.51 Inf 1 -0.71 0.48
(cdg225 wild-type) / (cdg384 wild-type) 0.07 0.07 Inf 1 -2.44 0.01
(cdg225 wild-type) / (cdg384 cd225) 0.05 0.06 Inf 1 -2.49 0.01
(cdg225 wild-type) / (cdg225 cd384) 1.22 1.7 Inf 1 0.14 0.89
(cdg225 wild-type) / (cdg338-384 cd384) 0.48 0.66 Inf 1 -0.54 0.59
(cdg225 wild-type) / (cdg384 cd384) 11 15.09 Inf 1 1.75 0.08
(cdg338-384 wild-type) / (cdg384_del wild-type) 8.04 9.77 Inf 1 1.72 0.09
(cdg338-384 wild-type) / (cdg384 wild-type) 1.26 1.42 Inf 1 0.21 0.84
(cdg338-384 wild-type) / (cdg384 cd225) 0.9 1.11 Inf 1 -0.08 0.93
(cdg338-384 wild-type) / (cdg225 cd384) 23.12 32.51 Inf 1 2.23 0.03
(cdg338-384 wild-type) / (cdg338-384 cd384) 9.03 12.56 Inf 1 1.58 0.11
(cdg338-384 wild-type) / (cdg384 cd384) 208.5 289.56 Inf 1 3.84 0
(cdg384_del wild-type) / (cdg384 wild-type) 0.16 0.14 Inf 1 -2.13 0.03
(cdg384_del wild-type) / (cdg384 cd225) 0.11 0.11 Inf 1 -2.17 0.03
(cdg384_del wild-type) / (cdg225 cd384) 2.87 3.47 Inf 1 0.87 0.38
(cdg384_del wild-type) / (cdg338-384 cd384) 1.12 1.34 Inf 1 0.1 0.92
(cdg384_del wild-type) / (cdg384 cd384) 25.92 30.79 Inf 1 2.74 0.01
(cdg384 wild-type) / (cdg384 cd225) 0.72 0.64 Inf 1 -0.37 0.71
(cdg384 wild-type) / (cdg225 cd384) 18.33 20.52 Inf 1 2.6 0.01
(cdg384 wild-type) / (cdg338-384 cd384) 7.15 7.89 Inf 1 1.78 0.07
(cdg384 wild-type) / (cdg384 cd384) 165.25 181.37 Inf 1 4.65 0
(cdg384 cd225) / (cdg225 cd384) 25.58 31.43 Inf 1 2.64 0.01
(cdg384 cd225) / (cdg338-384 cd384) 9.99 12.11 Inf 1 1.9 0.06
(cdg384 cd225) / (cdg384 cd384) 230.68 278.78 Inf 1 4.5 0
(cdg225 cd384) / (cdg338-384 cd384) 0.39 0.54 Inf 1 -0.68 0.5
(cdg225 cd384) / (cdg384 cd384) 9.02 12.44 Inf 1 1.59 0.11
(cdg338-384 cd384) / (cdg384 cd384) 23.1 31.59 Inf 1 2.3 0.02

Meiotic Drive data

  Meiotic Drive
Predictors Odds Ratios 95% CI P-Value
(Intercept) 0.98 0.89 – 1.08 0.751
gRNA type
[cdg384]
0.95 0.84 – 1.08 0.434
Observations 32
Transgenic Estimate
cdg338-384 0.5
(0.47-0.52)
cdg384 0.48
(0.46-0.5)

Indel formation

Frequency of missing guide sites

Venn diagram of missing guide sites